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Category Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21

GIFtS
-

RNF17 Gene

protein-coding GIFtS: 48
GCID: GC13P025338

ring finger protein 17

(Previous name: tudor domain containing 4 )
(Previous symbol: TDRD4)

Explore 1 disease affiliated with
RNF17 via

MalaCards

our new
Human Malady Compendium

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, and/or ¹⁰fRNAdb)
About This Section

Aliases
Ring Finger Protein 17¹ ²		Tudor Domain Containing 4¹ ²
TDRD4¹ ² ³		Tudor Domain-Containing Protein 4² ³
Mmip-2¹ ²		FLJ11045¹
SPATA23¹ ²		Spermatogenesis Associated 23²

External Ids:	HGNC: 10060¹	Entrez Gene: 56163²	Ensembl: ENSG00000132972⁷	OMIM: 605793⁵	UniProtKB: Q9BXT8³

Export aliases for RNF17 gene to outside databases

Previous GC identifers: GC13P023318 GC13P019318 GC13P024268 GC13P023136 GC13P024236 GC13P006151

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for RNF17:

This gene is similar to a mouse gene that encodes a testis-specific protein containing a RING finger domain.

Alternatively spliced transcript variants encoding different isoforms have been found. (provided by RefSeq, May 2010)

UniProtKB/Swiss-Prot: RNF17_HUMAN, Q9BXT8

Function: Seems to be involved in regulation of transcriptional activity of MYC. In vitro, inhibits DNA-binding

activity of Mad-MAX heterodimers. Can recruit Mad transcriptional repressors (MXD1, MXD3, MXD4 and MXI1) to the

cytoplasm. May be involved in spermiogenesis (By similarity)

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section

RefSeq DNA sequence:

NC_000013.10 NC_018924.1 NT_024524.14

Regulatory elements:

SABiosciences Regulatory transcription factor binding sites in the RNF17 gene promoter:
FOXD1 HNF-4alpha2 HNF-4alpha1 E47 Evi-1 GATA-2 RORalpha1 c-Rel c-Jun Hlf
Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: RNF17 promoter sequence

Search SABiosciences Chromatin IP Primers for RNF17

Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RNF17

Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 13q12.12 Ensembl cytogenetic band: 13q12.12 HGNC cytogenetic band: 13q12.13

RNF17 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RNF17 gene location

GeneLoc information about chromosome 13 GeneLoc Exon Structure

GeneLoc location for GC13P025338: view genomic region (about GC identifiers)

Start:	25,338,290 bp from pter	End:	25,454,059 bp from pter
Size:	115,770 bases	Orientation:	plus strand

(According to ¹UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to ²PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: RNF17_HUMAN, Q9BXT8 (See protein sequence)

Recommended Name: RING finger protein 17

Size: 1623 amino acids; 184643 Da

Subunit: Interacts with MXD1, MXD3, MXD4, MXI1 and PIWIL1. Self-associates (By similarity)

Subcellular location: Cytoplasm (By similarity). Nucleus (By similarity). Note=Predominantly found in the cytoplasm.

Component of a nuage in male germ cells (an electron-dense spherical cytoplasmic body present in late pachytene and

diplotene spermatocytes and in elonging spermatids) (By similarity)

Sequence caution: Sequence=AAH64847.1; Type=Erroneous initiation; Sequence=BAA91972.1; Type=Erroneous initiation;

1 PDB 3D structure from and Proteopedia for RNF17:

2EQK (3D)

Secondary accessions: Q5T2J9 Q6P1W3 Q9BXT7 Q9NUY9

Alternative splicing: 5 isoforms: Q9BXT8-3 Q9BXT8-1 Q9BXT8-2 Q9BXT8-4 Q9BXT8-5 (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for RNF17: NX_Q9BXT8

Post-translational modifications:

View modification sites using PhosphoSitePlus²

View neXtProt modification sites for NX_Q9BXT8

RNF17 Protein expression data from MOPED and PaxDb: About this image

REFSEQ proteins (2 alternative transcripts):

NP_001171922.1 NP_112567.2

ENSEMBL proteins:

ENSP00000255324 ENSP00000255325 ENSP00000388892 ENSP00000344776 ENSP00000371346

ENSP00000255326

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	Uscn Proteins for RNF17

Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005634	nucleus	IEA	--
GO:0005737	cytoplasm	IEA	--

RNF17 for ontologies About GeneDecksing

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	Uscn ELISAs and CLIAs for RNF17

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

RNF17 for domains About GeneDecksing

4 InterPro domains/families:

IPR006021 Staphylococcal_nuclease

IPR017907 Znf_RING_CS

IPR001841 Znf_RING

IPR002999 Tudor

Graphical View of Domain Structure for InterPro Entry Q9BXT8

ProtoNet protein and cluster: Q9BXT8

2 Blocks protein families:

IPB001841 Zn-finger

IPB008191 Maternal tudor protein

UniProtKB/Swiss-Prot: RNF17_HUMAN, Q9BXT8

Similarity: Contains 1 RING-type zinc finger

Similarity: Contains 4 Tudor domains

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section

Function Summary:

UniProtKB/Swiss-Prot: RNF17_HUMAN, Q9BXT8

Function: Seems to be involved in regulation of transcriptional activity of MYC. In vitro, inhibits DNA-binding

activity of Mad-MAX heterodimers. Can recruit Mad transcriptional repressors (MXD1, MXD3, MXD4 and MXI1) to the

cytoplasm. May be involved in spermiogenesis (By similarity)

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In Situ Assay
Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RNF17

Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0003676	nucleic acid binding	IEA	--
GO:0008270	zinc ion binding	IEA	--
GO:0016788	hydrolase activity, acting on ester bonds	IEA	--
GO:0042803	protein homodimerization activity	IEA	--

RNF17 for ontologies About GeneDecksing

2 GenomeRNAi human phenotypes for RNF17:

Increased gamma-H2AX phosphory

Synthetic lethal with c-Myc af

Animal Models:
Mouse knock-out Rnf17^tm1Jw for RNF17
2 MGI mutant phenotypes (inferred from 1 allele) (MGI details for Rnf17):

endocrine/exocrine gland

reproductive system

RNF17 for phenotypes About GeneDecksing

(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to ¹UniProtKB, ²MINT, ³I2D, and/or ⁴STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
About This Section

Interactions:

Search SABiosciences Gene Network Central^TM Interacting Genes and Proteins Networks for RNF17

STRING Interaction Network Preview (showing 3 interactants - click image to see more details)

5/528 Interacting proteins for RNF17 (Q9BXT8^{2, 3} ENSP00000255324⁴) via UniProtKB, MINT, STRING, and/or I2D (see all 528)

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
UBE2U	Q5VVX9³, ENSP00000360116⁴	I2D: score=1 STRING: ENSP00000360116
CDC5L	Q99459², ENSP00000360532⁴	MINT-7947479 STRING: ENSP00000360532
ABCF1	Q8NE71²	MINT-7947479
ABCF3	Q9NUQ8²	MINT-7947479
ACTB	P60709²	MINT-7947479

About this table

Gene Ontology (GO): 2 biological process terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0007275	multicellular organismal development	IEA	--
GO:0007286	spermatid development	IEA	--

RNF17 for ontologies About GeneDecksing

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section

Browse Small Molecules at EMD Millipore

Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for RNF17
Search CenterWatch for drugs/clinical trials and news about RNF17

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

REFSEQ mRNAs for RNF17 gene (3 alternative transcripts):

NM_001184993.1 NM_031277.2 NM_031994.1

Unigene Cluster for RNF17:

Ring finger protein 17

Hs.97464 [show with all ESTs]

Unigene Representative Sequence: BC037275

7 Ensembl transcripts including schematic representations, and UCSC links where relevant:

ENST00000255324(uc001upr.3 uc010tde.2 uc010aab.3 uc001ups.3 uc010aac.3 uc010aad.3)

ENST00000255325 ENST00000487529 ENST00000418120 ENST00000339524 ENST00000381921(uc010tdd.1)

ENST00000255326(uc001upq.1)

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Additional cDNA sequence:

AK001907.1 AK302405.1 AK302435.1 BC037275.1 BC064847.1

6 DOTS entries:

DT.99934906 DT.105575 DT.100718711 DT.92414307 DT.91752138 DT.100748768

24/33 AceView cDNA sequences (see all 33):

CR618892 BC064847 CD557770 AA917074 NM_019038 AF285602 BQ432720 NM_031994

AF285603 AK001907 AU156763 BC037275 BI459805 BX093151 CD358307 AU136520

BX378978 CD557354 AI637931 AI807800 BU182455 AI684454 AI655402 AA400911

GeneLoc Exon Structure

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

RNF17 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: GCTCCAGCAC

About this image

RNF17 expression in embryonic tissues and stem cells

Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine About this table

Stem Cell Differentiation: 3 LifeMap Cells

Name

Category

ES-J1 (Embryonic Stem Cell)

Early Embryo, Inner Cell Mass

Short-term differentiated embryoid bodies (Derivation of embryo...)

Embryoid bodies (Derivation of embryo...)

Expression:

Positive

Negative

Selective marker

Experimental details:

Curated

Microarrays

In-situ hybridization

See RNF17 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for RNF17

SOURCE GeneReport for Unigene cluster: Hs.97464

UniProtKB/Swiss-Prot: RNF17_HUMAN, Q9BXT8

Tissue specificity: Testis specific

SABiosciences Custom PCR Arrays for RNF17

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In Situ
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(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD , ⁵MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or ⁶Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section

This gene was present in the common ancestor of animals.

Orthologs for RNF17 gene from 4/13 species (see all 13) About this table

Organism	Taxonomic classification	Gene	Description	Human Similarity	Orthology Type	Details
chicken (Gallus gallus)	Aves	RNF17¹	ring finger protein 17	62.14(n) 50.6(a)		418961 XM_417153.3 XP_417153.3
lizard (Anolis carolinensis)	Reptilia	RNF17⁶	--	47(a)	1 ↔ 1	3(186850048-186903509)
zebrafish (Danio rerio)	Actinopterygii	rnf17¹	ring finger protein 17	47.31(n) 35.25(a)		334519 XM_692362.2 XP_697454.2
fruit fly (Drosophila melanogaster)	Insecta	tud⁶	tudor	7(a)	1 ↔ 1	2R(17070937-17079903)

ENSEMBL Gene Tree for RNF17 (if available)
TreeFam Gene Tree for RNF17 (if available)

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68)
About This Section

Paralogs for RNF17 gene

TDRD6² TDRD1² TDRD15²

RNF17 for paralogs About GeneDecksing

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

SNP ID	Valid	Clinical significance	Chr 13 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs150736079^1,2	C,F	other	25367402(+)	`GCATCC/G/TCCTAA`	6	S	syn¹		2		NA EU	5873
rs76489275^1,2	C,	--	6169224(+)	`TTTTTC/TCCAGG`	1	--	int¹		0	--	--	--	--
rs57828833^1,2	F,	--	25336336(+)	`AACCCA/GGTCAA`	2	--	us2k¹		3		WA NA EA	358
rs138714880^1,2		--	25336415(+)	`AGACAA/GGAGAA`	2	--	us2k¹		0	--	--	--	--
rs149275991^1,2		--	25336426(+)	`TTGCTG/TGAACC`	2	--	us2k¹		0	--	--	--	--
rs191951473^1,2		--	25336432(+)	`GAACCA/CGGAGA`	2	--	us2k¹		0	--	--	--	--
rs144534337^1,2		--	25336459(+)	`CTGAGA/TTCTCG`	2	--	us2k¹		0	--	--	--	--
rs184789578^1,2		--	25336486(+)	`TGGGCA/GACAGA`	2	--	us2k¹		0	--	--	--	--
rs10534430^1,2	C	--	25336508(+)	`aaaaa-/AAAAAA aaaaa`	2	--	us2k¹		1		NA	2
rs111959328^1,2	C,F	--	25336508(+)	`TTTCTT/AAAAAA`	2	--	us2k¹		2		WA NA	4

HapMap Linkage Disequilibrium report for RNF17 (25338290 - 25454059 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for RNF17
1 Indel: 11076

SABiosciences Cancer Mutation PCR Assays

QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing RNF17

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section

RNF17 for disorders           About GeneDecksing

OMIM gene information: 605793    OMIM disorders: --

1 disease for RNF17:    About MalaCards

liver cancer

Export disorders for RNF17 gene to outside databases

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶HMDB, ⁷DrugBank, ⁸UniProtKB/TrEMBL, ⁹ Novoseek, and/or ¹⁰fRNAdb)
About This Section

PubMed articles for RNF17 gene integrated from 9 sources:
(articles sorted by number of sources associating them with RNF17)

Utopia: connect your pdf to the dynamic
world of online information

An abundance of X-linked genes expressed in spermatogonia. (PubMed id 11279525)^{1, 2, 3} Wang P.J.... Page D.C. (2001)
Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)^{1, 2} Ota T.... Sugano S. (2004)
Tudor domain-containing protein 4 as a potential canc er/testis antigen in liver cancer. (PubMed id 21515969)¹ Yoon H....Kim H. (2011)
A comprehensive framework of E2-RING E3 interactions of the human ubiquitin-proteasome system. (PubMed id 19690564)¹ van Wijk S.J....Timmers H.T. (2009)
The DNA sequence and analysis of human chromosome 13. (PubMed id 15057823)² Dunham A.... Ross M.T. (2004)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)² Gerhard D.S....Malek J. (2004)
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)¹ Strausberg R.L....Marra M.A. (2002)
Androgen-receptor-interacting nuclear proteins. (PubMed id 10961928)¹ Janne O.A....Palvimo J.J. (2000)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

		AND	OR
Aliases
Free Text

Query String		PubMed OMIM NCBI Bookshelf
	(Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section

Entrez Gene: 56163	HGNC: 10060	AceView: TDRD4andRNF17	Ensembl:ENSG00000132972	euGenes: HUgn56163
ECgene: RNF17	H-InvDB: RNF17

(According to HUGE)
About This Section

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

Name	Description
PharmGKB entry for RNF17	Pharmacogenomics, SNPs, Pathways
ATLAS Chromosomes in Cancer entry for RNF17	Genetics and Cytogenetics in Oncology and Haematology

Intellectual Property for RNF17 gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

About This Section

Patent Information for RNF17 gene:
Search GeneIP for patents involving RNF17

GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences),
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Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RNF17

GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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Category			VWF (GIFTS: 73) von Willebrand factor
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The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

The GeneCards Human Gene Database

Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

Hot genes Disease genes RNF17 gene at Home site.

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RNF17 Gene

ring finger protein 17

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RNF17 Gene

ring finger protein 17

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